Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 33.45 kDa 
• Atom Count: 2874 
• Modelled Residue Count: 306 
• Deposited Residue Count: 306 
• Unique protein chains: 1

4A7T

Structure of human I113T SOD1 mutant complexed with isoproteranol in the p21 space group

• PDB DOI: 10.2210/pdb4A7T/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2011-11-14 Released: 2012-11-28 
• Deposition Author(s): Wright, G.S.A., Kershaw, N.M., Antonyuk, S.V., Strange, R.W., ONeil, P.M., Hasnain, S.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.188 
• R-Value Work: 0.157 
• R-Value Observed: 0.158 

Literature

Ligand Binding and Aggregation of Pathogenic Sod1.

Wright, G.S.A., Antonyuk, S.V., Kershaw, N.M., Strange, R.W., Hasnain, S.S.

(2013) Nat Commun 4: 1758

• PubMed: 23612299 
• DOI: 10.1038/ncomms2750
• Primary Citation of Related Structures:  
  4A7S, 4A7T, 4A7U, 4A7V


• PubMed Abstract: 
  

Mutations in the gene encoding Cu/Zn superoxide dismutase-1 cause amyotrophic lateral sclerosis. Superoxide dismutase-1 mutations decrease protein stability and promote aggregation. The mutant monomer is thought to be an intermediate in the pathway from the superoxide dismutase-1 dimer to aggregate. Here we find that the monomeric copper-apo, zinc-holo protein is structurally perturbed and the apo-protein aggregates without reattainment of the monomer-dimer equilibrium. Intervention to stabilize the superoxide dismutase-1 dimer and inhibit aggregation is regarded as a potential therapeutic strategy. We describe protein-ligand interactions for two compounds, Isoproterenol and 5-fluorouridine, highlighted as superoxide dismutase-1 stabilizers. We find both compounds interact with superoxide dismutase-1 at a key region identified at the core of the superoxide dismutase-1 fibrillar aggregates, β-barrel loop II-strand 3, rather than the proposed dimer interface site. This illustrates the need for direct structural observations when developing compounds for protein-targeted therapeutics.

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Organizational Affiliation: 

Molecular Biophysics Group, Institute of Integrative Biology, Faculty of Health and Life Sciences, University of Liverpool, Liverpool L69 7ZB, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SUPEROXIDE DISMUTASE [CU-ZN]	A, B [auth F]	153	Homo sapiens	Mutation(s): 1  Gene Names: SOD1 EC: 1.15.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for P00441 (Homo sapiens) Explore P00441  Go to UniProtKB:  P00441
PHAROS:  P00441 GTEx:  ENSG00000142168

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
5FW	C [auth A], D [auth A], E [auth A], K [auth F], L [auth F]	ISOPRENALINE C11 H17 N O3 JWZZKOKVBUJMES-NSHDSACASA-N
SO4	F [auth A], G [auth A], M [auth F], Q [auth F]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ZN	J [auth A], O [auth F]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CU	I [auth A], N [auth F]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N
ACT	H [auth A], P [auth F]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.188 
• R-Value Work: 0.157 
• R-Value Observed: 0.158 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.89	α = 90
b = 68.02	β = 103.95
c = 49.31	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-11-14 
• Released Date: 2012-11-28 
Deposition Author(s): Wright, G.S.A., Kershaw, N.M., Antonyuk, S.V., Strange, R.W., ONeil, P.M., Hasnain, S.S.

Revision History  

• Version 1.0: 2012-11-28
  Type: Initial release
  
• Version 1.1: 2013-04-24
  Changes: Database references
• Version 1.2: 2013-05-08
  Changes: Database references